keep factory sub connected or not?

[04glr 10+ year member]

I have a factory free air sub on the rear deck. I just installed an amp/sub in the trunk. Right now the factory sub is disconnected because I think the force of the air from the aftermarket sub will affect its sound. My question is will it really affect it? Can I reconnect the factory sub back on?

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[Slayerx 10+ year member]

Disconnect it, and remove the sub itself and see if it helps output.